| Year |
Citation |
Score |
| 2023 |
Lorenzetti APR, Kusebauch U, Zaramela LS, Wu WJ, de Almeida JPP, Turkarslan S, L G de Lomana A, Gomes-Filho JV, Vêncio RZN, Moritz RL, Koide T, Baliga NS. A Genome-Scale Atlas Reveals Complex Interplay of Transcription and Translation in an Archaeon. Msystems. e0081622. PMID 36912639 DOI: 10.1128/msystems.00816-22 |
0.371 |
|
| 2020 |
López García de Lomana A, Kusebauch U, Raman AV, Pan M, Turkarslan S, Lorenzetti APR, Moritz RL, Baliga NS. Selective Translation of Low Abundance and Upregulated Transcripts in Halobacterium salinarum. Msystems. 5. PMID 32723790 DOI: 10.1128/mSystems.00329-20 |
0.324 |
|
| 2020 |
Arrieta-Ortiz ML, Hafemeister C, Shuster B, Baliga NS, Bonneau R, Eichenberger P. Inference of Bacterial Small RNA Regulatory Networks and Integration with Transcription Factor-Driven Regulatory Networks. Msystems. 5. PMID 32487739 DOI: 10.1128/mSystems.00057-20 |
0.311 |
|
| 2020 |
Peterson EJR, Abidi AA, Arrieta-Ortiz ML, Aguilar B, Yurkovich JT, Kaur A, Pan M, Srinivas V, Shmulevich I, Baliga NS. Intricate Genetic Programs Controlling Dormancy in Mycobacterium tuberculosis. Cell Reports. 31: 107577. PMID 32348771 DOI: 10.1016/J.Celrep.2020.107577 |
0.377 |
|
| 2019 |
Peterson EJ, Bailo R, Rothchild AC, Arrieta-Ortiz ML, Kaur A, Pan M, Mai D, Abidi AA, Cooper C, Aderem A, Bhatt A, Baliga NS. Path-seq identifies an essential mycolate remodeling program for mycobacterial host adaptation. Molecular Systems Biology. 15: e8584. PMID 30833303 DOI: 10.15252/Msb.20188584 |
0.308 |
|
| 2018 |
Otwell AE, López García de Lomana A, Gibbons SM, Orellana MV, Baliga NS. Systems biology approaches towards predictive microbial ecology. Environmental Microbiology. PMID 30106224 DOI: 10.1111/1462-2920.14378 |
0.328 |
|
| 2018 |
Ament SA, Pearl JR, Cantle JP, Bragg RM, Skene PJ, Coffey SR, Bergey DE, Wheeler VC, MacDonald ME, Baliga NS, Rosinski J, Hood LE, Carroll JB, Price ND. Transcriptional regulatory networks underlying gene expression changes in Huntington's disease. Molecular Systems Biology. 14: e7435. PMID 29581148 DOI: 10.15252/Msb.20167435 |
0.569 |
|
| 2017 |
Qin W, Amin SA, Lundeen RA, Heal KR, Martens-Habbena W, Turkarslan S, Urakawa H, Costa KC, Hendrickson EL, Wang T, Beck DA, Tiquia-Arashiro SM, Taub F, Holmes AD, Vajrala N, ... ... Baliga NS, et al. Stress response of a marine ammonia-oxidizing archaeon informs physiological status of environmental populations. The Isme Journal. PMID 29053148 DOI: 10.1038/Ismej.2017.186 |
0.328 |
|
| 2017 |
López García de Lomana A, Kaur A, Turkarslan S, Beer KD, Mast FD, Smith JJ, Aitchison JD, Baliga NS. Adaptive Prediction Emerges Over Short Evolutionary Time Scales. Genome Biology and Evolution. 9: 1616-1623. PMID 28854640 DOI: 10.1093/Gbe/Evx116 |
0.326 |
|
| 2017 |
Wang Z, Danziger SA, Heavner BD, Ma S, Smith JJ, Li S, Herricks T, Simeonidis E, Baliga NS, Aitchison JD, Price ND. Combining inferred regulatory and reconstructed metabolic networks enhances phenotype prediction in yeast. Plos Computational Biology. 13: e1005489. PMID 28520713 DOI: 10.1371/Journal.Pcbi.1005489 |
0.379 |
|
| 2017 |
Thompson AW, Turkarslan S, Arens CE, López García de Lomana A, Raman AV, Stahl DA, Baliga NS. Robustness of a model microbial community emerges from population structure among single cells of a clonal population. Environmental Microbiology. PMID 28419704 DOI: 10.1111/1462-2920.13764 |
0.309 |
|
| 2017 |
Turkarslan S, Raman AV, Thompson AW, Arens CE, Gillespie MA, von Netzer F, Hillesland KL, Stolyar S, López García de Lomana A, Reiss DJ, Gorman-Lewis D, Zane GM, Ranish JA, Wall JD, Stahl DA, ... Baliga NS, et al. Mechanism for microbial population collapse in a fluctuating resource environment. Molecular Systems Biology. 13: 919. PMID 28320772 DOI: 10.15252/Msb.20167058 |
0.379 |
|
| 2016 |
Keller MP, Paul PK, Rabaglia ME, Stapleton DS, Schueler KL, Broman AT, Ye SI, Leng N, Brandon CJ, Neto EC, Plaisier CL, Simonett SP, Kebede MA, Sheynkman GM, Klein MA, ... Baliga NS, et al. The Transcription Factor Nfatc2 Regulates β-Cell Proliferation and Genes Associated with Type 2 Diabetes in Mouse and Human Islets. Plos Genetics. 12: e1006466. PMID 27935966 DOI: 10.1371/Journal.Pgen.1006466 |
0.343 |
|
| 2016 |
Patra B, Kon Y, Yadav G, Sevold AW, Frumkin JP, Vallabhajosyula RR, Hintze A, Østman B, Schossau J, Bhan A, Marzolf B, Tamashiro JK, Kaur A, Baliga NS, Grayhack EJ, et al. A genome wide dosage suppressor network reveals genomic robustness. Nucleic Acids Research. PMID 27899637 DOI: 10.1093/Nar/Gkw1148 |
0.436 |
|
| 2016 |
Plaisier CL, O'Brien S, Bernard B, Reynolds S, Simon Z, Toledo CM, Ding Y, Reiss DJ, Paddison PJ, Baliga NS. Causal Mechanistic Regulatory Network for Glioblastoma Deciphered Using Systems Genetics Network Analysis. Cell Systems. PMID 27426982 DOI: 10.1016/J.Cels.2016.06.006 |
0.379 |
|
| 2015 |
Toledo CM, Ding Y, Hoellerbauer P, Davis RJ, Basom R, Girard EJ, Lee E, Corrin P, Hart T, Bolouri H, Davison J, Zhang Q, Hardcastle J, Aronow BJ, Plaisier CL, ... Baliga NS, et al. Genome-wide CRISPR-Cas9 Screens Reveal Loss of Redundancy between PKMYT1 and WEE1 in Glioblastoma Stem-like Cells. Cell Reports. PMID 26673326 DOI: 10.1016/J.Celrep.2015.11.021 |
0.319 |
|
| 2015 |
López García de Lomana A, Schäuble S, Valenzuela J, Imam S, Carter W, Bilgin DD, Yohn CB, Turkarslan S, Reiss DJ, Orellana MV, Price ND, Baliga NS. Transcriptional program for nitrogen starvation-induced lipid accumulation in Chlamydomonas reinhardtii. Biotechnology For Biofuels. 8: 207. PMID 26633994 DOI: 10.1186/S13068-015-0391-Z |
0.381 |
|
| 2015 |
Ashworth J, Turkarslan S, Harris M, Orellana MV, Baliga NS. Pan-transcriptomic analysis identifies coordinated and orthologous functional modules in the diatoms Thalassiosira pseudonana and Phaeodactylum tricornutum. Marine Genomics. PMID 26560047 DOI: 10.1016/J.Margen.2015.10.011 |
0.426 |
|
| 2015 |
Imam S, Schäuble S, Valenzuela J, López García de Lomana A, Carter W, Price ND, Baliga NS. A refined genome-scale reconstruction of Chlamydomonas metabolism provides a platform for systems-level analyses. The Plant Journal : For Cell and Molecular Biology. PMID 26485611 DOI: 10.1111/Tpj.13059 |
0.394 |
|
| 2015 |
Imam S, Schäuble S, Brooks AN, Baliga NS, Price ND. Data-driven integration of genome-scale regulatory and metabolic network models. Frontiers in Microbiology. 6: 409. PMID 25999934 DOI: 10.3389/Fmicb.2015.00409 |
0.363 |
|
| 2015 |
Turkarslan S, Peterson EJ, Rustad TR, Minch KJ, Reiss DJ, Morrison R, Ma S, Price ND, Sherman DR, Baliga NS. A comprehensive map of genome-wide gene regulation in Mycobacterium tuberculosis. Scientific Data. 2: 150010. PMID 25977815 DOI: 10.1038/Sdata.2015.10 |
0.414 |
|
| 2015 |
Danziger SA, Reiss DJ, Ratushny AV, Smith JJ, Plaisier CL, Aitchison JD, Baliga NS. Bicluster Sampled Coherence Metric (BSCM) provides an accurate environmental context for phenotype predictions. Bmc Systems Biology. 9: S1. PMID 25881257 DOI: 10.1186/1752-0509-9-S2-S1 |
0.303 |
|
| 2015 |
Reiss DJ, Plaisier CL, Wu WJ, Baliga NS. cMonkey2: Automated, systematic, integrated detection of co-regulated gene modules for any organism. Nucleic Acids Research. PMID 25873626 DOI: 10.1093/Nar/Gkv300 |
0.385 |
|
| 2015 |
Gomes-Filho JV, Zaramela LS, Italiani VC, Baliga NS, Vêncio RZ, Koide T. Sense overlapping transcripts in IS1341-type transposase genes are functional non-coding RNAs in archaea. Rna Biology. 12: 490-500. PMID 25806405 DOI: 10.1080/15476286.2015.1019998 |
0.423 |
|
| 2015 |
Minch KJ, Rustad TR, Peterson EJ, Winkler J, Reiss DJ, Ma S, Hickey M, Brabant W, Morrison B, Turkarslan S, Mawhinney C, Galagan JE, Price ND, Baliga NS, Sherman DR. The DNA-binding network of Mycobacterium tuberculosis. Nature Communications. 6: 5829. PMID 25581030 DOI: 10.1038/Ncomms6829 |
0.363 |
|
| 2014 |
Muller EE, Pinel N, Laczny CC, Hoopmann MR, Narayanasamy S, Lebrun LA, Roume H, Lin J, May P, Hicks ND, Heintz-Buschart A, Wampach L, Liu CM, Price LB, Gillece JD, ... ... Baliga NS, et al. Community-integrated omics links dominance of a microbial generalist to fine-tuned resource usage. Nature Communications. 5: 5603. PMID 25424998 DOI: 10.1038/Ncomms6603 |
0.345 |
|
| 2014 |
Plaisier CL, Lo FY, Ashworth J, Brooks AN, Beer KD, Kaur A, Pan M, Reiss DJ, Facciotti MT, Baliga NS. Evolution of context dependent regulation by expansion of feast/famine regulatory proteins. Bmc Systems Biology. 8: 122. PMID 25394904 DOI: 10.1186/S12918-014-0122-2 |
0.67 |
|
| 2014 |
Rustad TR, Minch KJ, Ma S, Winkler JK, Hobbs S, Hickey M, Brabant W, Turkarslan S, Price ND, Baliga NS, Sherman DR. Mapping and manipulating the Mycobacterium tuberculosis transcriptome using a transcription factor overexpression-derived regulatory network. Genome Biology. 15: 502. PMID 25380655 DOI: 10.1186/S13059-014-0502-3 |
0.375 |
|
| 2014 |
Ashworth J, Bernard B, Reynolds S, Plaisier CL, Shmulevich I, Baliga NS. Structure-based predictions broadly link transcription factor mutations to gene expression changes in cancers. Nucleic Acids Research. 42: 12973-83. PMID 25378323 DOI: 10.1093/Nar/Gku1031 |
0.331 |
|
| 2014 |
Ashworth J, Plaisier CL, Lo FY, Reiss DJ, Baliga NS. Inference of expanded Lrp-like feast/famine transcription factor targets in a non-model organism using protein structure-based prediction. Plos One. 9: e107863. PMID 25255272 DOI: 10.1371/Journal.Pone.0107863 |
0.491 |
|
| 2014 |
Zaramela LS, Vêncio RZ, ten-Caten F, Baliga NS, Koide T. Transcription start site associated RNAs (TSSaRNAs) are ubiquitous in all domains of life. Plos One. 9: e107680. PMID 25238539 DOI: 10.1371/Journal.Pone.0107680 |
0.356 |
|
| 2014 |
Peterson EJ, Reiss DJ, Turkarslan S, Minch KJ, Rustad T, Plaisier CL, Longabaugh WJ, Sherman DR, Baliga NS. A high-resolution network model for global gene regulation in Mycobacterium tuberculosis. Nucleic Acids Research. 42: 11291-303. PMID 25232098 DOI: 10.1093/Nar/Gku777 |
0.452 |
|
| 2014 |
Brooks AN, Reiss DJ, Allard A, Wu WJ, Salvanha DM, Plaisier CL, Chandrasekaran S, Pan M, Kaur A, Baliga NS. A system-level model for the microbial regulatory genome. Molecular Systems Biology. 10: 740. PMID 25028489 DOI: 10.15252/Msb.20145160 |
0.49 |
|
| 2014 |
Wurtmann EJ, Ratushny AV, Pan M, Beer KD, Aitchison JD, Baliga NS. An evolutionarily conserved RNase-based mechanism for repression of transcriptional positive autoregulation. Molecular Microbiology. 92: 369-82. PMID 24612392 DOI: 10.1111/Mmi.12564 |
0.398 |
|
| 2014 |
Beer KD, Wurtmann EJ, Pinel N, Baliga NS. Model organisms retain an "ecological memory" of complex ecologically relevant environmental variation. Applied and Environmental Microbiology. 80: 1821-31. PMID 24413600 DOI: 10.1128/Aem.03280-13 |
0.347 |
|
| 2014 |
Turkarslan S, Wurtmann EJ, Wu WJ, Jiang N, Bare JC, Foley K, Reiss DJ, Novichkov P, Baliga NS. Network portal: a database for storage, analysis and visualization of biological networks. Nucleic Acids Research. 42: D184-90. PMID 24271392 DOI: 10.1093/Nar/Gkt1190 |
0.331 |
|
| 2014 |
Danziger SA, Ratushny AV, Smith JJ, Saleem RA, Wan Y, Arens CE, Armstrong AM, Sitko K, Chen WM, Chiang JH, Reiss DJ, Baliga NS, Aitchison JD. Molecular mechanisms of system responses to novel stimuli are predictable from public data. Nucleic Acids Research. 42: 1442-60. PMID 24185701 DOI: 10.1093/Nar/Gkt938 |
0.438 |
|
| 2013 |
Ho Yoon S, Turkarslan S, Reiss DJ, Pan M, Burn JA, Costa KC, Lie TJ, Slagel J, Moritz RL, Hackett M, Leigh JA, Baliga NS. A systems level predictive model for global gene regulation of methanogenesis in a hydrogenotrophic methanogen Genome Research. 23: 1839-1851. PMID 24089473 DOI: 10.1101/Gr.153916.112 |
0.442 |
|
| 2013 |
Orellana MV, Pang WL, Durand PM, Whitehead K, Baliga NS. A role for programmed cell death in the microbial loop. Plos One. 8: e62595. PMID 23667496 DOI: 10.1371/Journal.Pone.0062595 |
0.302 |
|
| 2013 |
Ashworth J, Coesel S, Lee A, Armbrust EV, Orellana MV, Baliga NS. Genome-wide diel growth state transitions in the diatom Thalassiosira pseudonana. Proceedings of the National Academy of Sciences of the United States of America. 110: 7518-23. PMID 23596211 DOI: 10.1073/Pnas.1300962110 |
0.409 |
|
| 2013 |
Costa KC, Yoon SH, Pan M, Burn JA, Baliga NS, Leigh JA. Effects of H2 and formate on growth yield and regulation of methanogenesis in Methanococcus maripaludis. Journal of Bacteriology. 195: 1456-62. PMID 23335420 DOI: 10.1128/Jb.02141-12 |
0.306 |
|
| 2013 |
Rustad TR, Minch KJ, Brabant W, Winkler JK, Reiss DJ, Baliga NS, Sherman DR. Global analysis of mRNA stability in Mycobacterium tuberculosis. Nucleic Acids Research. 41: 509-17. PMID 23125364 DOI: 10.1093/Nar/Gks1019 |
0.315 |
|
| 2012 |
Muller EE, Pinel N, Gillece JD, Schupp JM, Price LB, Engelthaler DM, Levantesi C, Tandoi V, Luong K, Baliga NS, Korlach J, Keim PS, Wilmes P. Genome sequence of "Candidatus Microthrix parvicella" Bio17-1, a long-chain-fatty-acid-accumulating filamentous actinobacterium from a biological wastewater treatment plant. Journal of Bacteriology. 194: 6670-1. PMID 23144412 DOI: 10.1128/Jb.01765-12 |
0.334 |
|
| 2012 |
Edgar RS, Green EW, Zhao Y, van Ooijen G, Olmedo M, Qin X, Xu Y, Pan M, Valekunja UK, Feeney KA, Maywood ES, Hastings MH, Baliga NS, Merrow M, Millar AJ, et al. Peroxiredoxins are conserved markers of circadian rhythms. Nature. 485: 459-64. PMID 22622569 DOI: 10.1038/Nature11088 |
0.352 |
|
| 2012 |
Ashworth J, Wurtmann EJ, Baliga NS. Reverse engineering systems models of regulation: discovery, prediction and mechanisms. Current Opinion in Biotechnology. 23: 598-603. PMID 22209016 DOI: 10.1016/J.Copbio.2011.12.005 |
0.351 |
|
| 2011 |
Turkarslan S, Reiss DJ, Gibbins G, Su WL, Pan M, Bare JC, Plaisier CL, Baliga NS. Niche adaptation by expansion and reprogramming of general transcription factors. Molecular Systems Biology. 7: 554. PMID 22108796 DOI: 10.1038/Msb.2011.87 |
0.418 |
|
| 2011 |
Yoon SH, Reiss DJ, Bare JC, Tenenbaum D, Pan M, Slagel J, Moritz RL, Lim S, Hackett M, Menon AL, Adams MW, Barnebey A, Yannone SM, Leigh JA, Baliga NS. Parallel evolution of transcriptome architecture during genome reorganization. Genome Research. 21: 1892-904. PMID 21750103 DOI: 10.1101/Gr.122218.111 |
0.477 |
|
| 2011 |
Plaisier CL, Bare JC, Baliga NS. miRvestigator: web application to identify miRNAs responsible for co-regulated gene expression patterns discovered through transcriptome profiling. Nucleic Acids Research. 39: W125-31. PMID 21602264 DOI: 10.1093/Nar/Gkr374 |
0.305 |
|
| 2011 |
Brooks AN, Turkarslan S, Beer KD, Lo FY, Baliga NS. Adaptation of cells to new environments. Wiley Interdisciplinary Reviews. Systems Biology and Medicine. 3: 544-61. PMID 21197660 DOI: 10.1002/Wsbm.136 |
0.368 |
|
| 2011 |
Schmid AK, Pan M, Sharma K, Baliga NS. Two transcription factors are necessary for iron homeostasis in a salt-dwelling archaeon. Nucleic Acids Research. 39: 2519-33. PMID 21109526 DOI: 10.1093/Nar/Gkq1211 |
0.344 |
|
| 2010 |
Kaur A, Van PT, Busch CR, Robinson CK, Pan M, Pang WL, Reiss DJ, DiRuggiero J, Baliga NS. Coordination of frontline defense mechanisms under severe oxidative stress. Molecular Systems Biology. 6: 393. PMID 20664639 DOI: 10.1038/Msb.2010.50 |
0.345 |
|
| 2010 |
Bare JC, Koide T, Reiss DJ, Tenenbaum D, Baliga NS. Integration and visualization of systems biology data in context of the genome. Bmc Bioinformatics. 11: 382. PMID 20642854 DOI: 10.1186/1471-2105-11-382 |
0.391 |
|
| 2010 |
Facciotti MT, Pang WL, Lo FY, Whitehead K, Koide T, Masumura K, Pan M, Kaur A, Larsen DJ, Reiss DJ, Hoang L, Kalisiak E, Northen T, Trauger SA, Siuzdak G, ... Baliga NS, et al. Large scale physiological readjustment during growth enables rapid, comprehensive and inexpensive systems analysis. Bmc Systems Biology. 4: 64. PMID 20470417 DOI: 10.1186/1752-0509-4-64 |
0.693 |
|
| 2009 |
Koide T, Reiss DJ, Bare JC, Pang WL, Facciotti MT, Schmid AK, Pan M, Marzolf B, Van PT, Lo FY, Pratap A, Deutsch EW, Peterson A, Martin D, Baliga NS. Prevalence of transcription promoters within archaeal operons and coding sequences. Molecular Systems Biology. 5: 285. PMID 19536208 DOI: 10.1038/Msb.2009.42 |
0.727 |
|
| 2009 |
Schmid AK, Reiss DJ, Pan M, Koide T, Baliga NS. A single transcription factor regulates evolutionarily diverse but functionally linked metabolic pathways in response to nutrient availability. Molecular Systems Biology. 5: 282. PMID 19536205 DOI: 10.1038/Msb.2009.40 |
0.395 |
|
| 2009 |
Whitehead K, Pan M, Masumura K, Bonneau R, Baliga NS. Diurnally entrained anticipatory behavior in archaea. Plos One. 4: e5485. PMID 19424498 DOI: 10.1371/Journal.Pone.0005485 |
0.357 |
|
| 2009 |
Koide T, Pang WL, Baliga NS. The role of predictive modelling in rationally re-engineering biological systems. Nature Reviews. Microbiology. 7: 297-305. PMID 19252506 DOI: 10.1038/Nrmicro2107 |
0.336 |
|
| 2008 |
Van PT, Schmid AK, King NL, Kaur A, Pan M, Whitehead K, Koide T, Facciotti MT, Goo YA, Deutsch EW, Reiss DJ, Mallick P, Baliga NS. Halobacterium salinarum NRC-1 PeptideAtlas: toward strategies for targeted proteomics and improved proteome coverage. Journal of Proteome Research. 7: 3755-64. PMID 18652504 DOI: 10.1021/Pr800031F |
0.62 |
|
| 2008 |
Rubio ED, Reiss DJ, Welcsh PL, Disteche CM, Filippova GN, Baliga NS, Aebersold R, Ranish JA, Krumm A. CTCF physically links cohesin to chromatin. Proceedings of the National Academy of Sciences of the United States of America. 105: 8309-14. PMID 18550811 DOI: 10.1073/Pnas.0801273105 |
0.327 |
|
| 2008 |
Baliga NS. Systems biology. The scale of prediction. Science (New York, N.Y.). 320: 1297-8. PMID 18535232 DOI: 10.1126/Science.1159485 |
0.321 |
|
| 2008 |
Reiss DJ, Facciotti MT, Baliga NS. Model-based deconvolution of genome-wide DNA binding. Bioinformatics (Oxford, England). 24: 396-403. PMID 18056063 DOI: 10.1093/Bioinformatics/Btm592 |
0.682 |
|
| 2008 |
Johnson MH, Facciotti MT, Reiss DJ, Whitehead K, Schmid A, Kaur A, Pan M, Shannon P, Tenenbaum D, Bonneau R, Baliga NS. QS437. Integrated Biological and Computational Analysis of Important But Largely Under-Studied Organisms Journal of Surgical Research. 144: 441. DOI: 10.1016/J.Jss.2007.12.695 |
0.642 |
|
| 2007 |
Bonneau R, Facciotti MT, Reiss DJ, Schmid AK, Pan M, Kaur A, Thorsson V, Shannon P, Johnson MH, Bare JC, Longabaugh W, Vuthoori M, Whitehead K, Madar A, Suzuki L, ... ... Baliga NS, et al. A predictive model for transcriptional control of physiology in a free living cell. Cell. 131: 1354-65. PMID 18160043 DOI: 10.1016/J.Cell.2007.10.053 |
0.741 |
|
| 2007 |
Schmid AK, Reiss DJ, Kaur A, Pan M, King N, Van PT, Hohmann L, Martin DB, Baliga NS. The anatomy of microbial cell state transitions in response to oxygen. Genome Research. 17: 1399-413. PMID 17785531 DOI: 10.1101/Gr.6728007 |
0.368 |
|
| 2007 |
Facciotti MT, Reiss DJ, Pan M, Kaur A, Vuthoori M, Bonneau R, Shannon P, Srivastava A, Donohoe SM, Hood LE, Baliga NS. General transcription factor specified global gene regulation in archaea. Proceedings of the National Academy of Sciences of the United States of America. 104: 4630-5. PMID 17360575 DOI: 10.1073/Pnas.0611663104 |
0.745 |
|
| 2006 |
Whitehead K, Kish A, Pan M, Kaur A, Reiss DJ, King N, Hohmann L, DiRuggiero J, Baliga NS. An integrated systems approach for understanding cellular responses to gamma radiation. Molecular Systems Biology. 2: 47. PMID 16969339 DOI: 10.1038/Msb4100091 |
0.356 |
|
| 2006 |
Kaur A, Pan M, Meislin M, Facciotti MT, El-Gewely R, Baliga NS. A systems view of haloarchaeal strategies to withstand stress from transition metals. Genome Research. 16: 841-54. PMID 16751342 DOI: 10.1101/Gr.5189606 |
0.629 |
|
| 2006 |
Reiss DJ, Baliga NS, Bonneau R. Integrated biclustering of heterogeneous genome-wide datasets for the inference of global regulatory networks. Bmc Bioinformatics. 7: 280. PMID 16749936 DOI: 10.1186/1471-2105-7-280 |
0.374 |
|
| 2006 |
Bonneau R, Reiss DJ, Shannon P, Facciotti M, Hood L, Baliga NS, Thorsson V. The Inferelator: an algorithm for learning parsimonious regulatory networks from systems-biology data sets de novo. Genome Biology. 7: R36. PMID 16686963 DOI: 10.1186/Gb-2006-7-5-R36 |
0.728 |
|
| 2006 |
Shannon PT, Reiss DJ, Bonneau R, Baliga NS. The Gaggle: an open-source software system for integrating bioinformatics software and data sources. Bmc Bioinformatics. 7: 176. PMID 16569235 DOI: 10.1186/1471-2105-7-176 |
0.3 |
|
| 2005 |
Iyer R, Baliga NS, Camilli A. Catabolite control protein A (CcpA) contributes to virulence and regulation of sugar metabolism in Streptococcus pneumoniae. Journal of Bacteriology. 187: 8340-9. PMID 16321938 DOI: 10.1128/Jb.187.24.8340-8349.2005 |
0.349 |
|
| 2004 |
Baliga NS, Bonneau R, Facciotti MT, Pan M, Glusman G, Deutsch EW, Shannon P, Chiu Y, Weng RS, Gan RR, Hung P, Date SV, Marcotte E, Hood L, Ng WV. Genome sequence of Haloarcula marismortui: a halophilic archaeon from the Dead Sea. Genome Research. 14: 2221-34. PMID 15520287 DOI: 10.1101/Gr.2700304 |
0.799 |
|
| 2004 |
Weston AD, Baliga NS, Bonneau R, Hood L. Systems approaches applied to the study of Saccharomyces cerevisiae and Halobacterium sp. Cold Spring Harbor Symposia On Quantitative Biology. 68: 345-57. PMID 15338636 DOI: 10.1101/Sqb.2003.68.345 |
0.469 |
|
| 2004 |
Bonneau R, Baliga NS, Deutsch EW, Shannon P, Hood L. Comprehensive de novo structure prediction in a systems-biology context for the archaea Halobacterium sp. NRC-1. Genome Biology. 5: R52. PMID 15287974 DOI: 10.1186/Gb-2004-5-8-R52 |
0.555 |
|
| 2004 |
Baliga NS, Bjork SJ, Bonneau R, Pan M, Iloanusi C, Kottemann MC, Hood L, DiRuggiero J. Systems level insights into the stress response to UV radiation in the halophilic archaeon Halobacterium NRC-1. Genome Research. 14: 1025-35. PMID 15140832 DOI: 10.1101/Gr.1993504 |
0.568 |
|
| 2004 |
Facciotti MT, Cheung VS, Lunde CS, Rouhani S, Baliga NS, Glaeser RM. Specificity of Anion Binding in the Substrate Pocket of Bacteriorhodopsin Biochemistry. 43: 4934-4943. PMID 15109251 DOI: 10.1021/Bi035757S |
0.689 |
|
| 2004 |
Goo YA, Roach J, Glusman G, Baliga NS, Deutsch K, Pan M, Kennedy S, DasSarma S, Ng WV, Hood L. Low-pass sequencing for microbial comparative genomics. Bmc Genomics. 5: 3. PMID 14718067 DOI: 10.1186/1471-2164-5-3 |
0.77 |
|
| 2004 |
Facciotti MT, Bonneau R, Hood L, Baliga NS. Systems biology experimental design - Considerations for building predictive gene regulatory network models for prokaryotic systems Current Genomics. 5: 527-544. DOI: 10.2174/1389202043348850 |
0.698 |
|
| 2003 |
Shannon P, Markiel A, Ozier O, Baliga NS, Wang JT, Ramage D, Amin N, Schwikowski B, Ideker T. Cytoscape: a software environment for integrated models of biomolecular interaction networks. Genome Research. 13: 2498-504. PMID 14597658 DOI: 10.1101/Gr.1239303 |
0.358 |
|
| 2003 |
Goo YA, Yi EC, Baliga NS, Tao WA, Pan M, Aebersold R, Goodlett DR, Hood L, Ng WV. Proteomic analysis of an extreme halophilic archaeon, Halobacterium sp. NRC-1. Molecular & Cellular Proteomics : McP. 2: 506-24. PMID 12872007 DOI: 10.1074/Mcp.M300044-Mcp200 |
0.723 |
|
| 2002 |
Baliga NS, Pan M, Goo YA, Yi EC, Goodlett DR, Dimitrov K, Shannon P, Aebersold R, Ng WV, Hood L. Coordinate regulation of energy transduction modules in Halobacterium sp. analyzed by a global systems approach. Proceedings of the National Academy of Sciences of the United States of America. 99: 14913-8. PMID 12403819 DOI: 10.1073/Pnas.192558999 |
0.737 |
|
| 2001 |
Dassarma S, Kennedy SP, Berquist B, Victor Ng W, Baliga NS, Spudich JL, Krebs MP, Eisen JA, Johnson CH, Hood L. Genomic perspective on the photobiology of Halobacterium species NRC-1, a phototrophic, phototactic, and UV-tolerant haloarchaeon. Photosynthesis Research. 70: 3-17. PMID 16228359 DOI: 10.1023/A:1013879706863 |
0.771 |
|
| 2001 |
Baliga NS. Promoter analysis by saturation mutagenesis. Biological Procedures Online. 3: 64-69. PMID 12734578 DOI: 10.1251/Bpo24 |
0.415 |
|
| 2001 |
Baliga NS, Kennedy SP, Ng WV, Hood L, DasSarma S. Genomic and genetic dissection of an archaeal regulon. Proceedings of the National Academy of Sciences of the United States of America. 98: 2521-5. PMID 11226271 DOI: 10.1073/Pnas.051632498 |
0.79 |
|
| 2000 |
Ng WV, Kennedy SP, Mahairas GG, Berquist B, Pan M, Shukla HD, Lasky SR, Baliga NS, Thorsson V, Sbrogna J, Swartzell S, Weir D, Hall J, Dahl TA, Welti R, et al. Genome sequence of Halobacterium species NRC-1. Proceedings of the National Academy of Sciences of the United States of America. 97: 12176-81. PMID 11016950 DOI: 10.1073/Pnas.190337797 |
0.769 |
|
| 2000 |
Baliga NS, Goo YA, Ng WV, Hood L, Daniels CJ, DasSarma S. Is gene expression in Halobacterium NRC-1 regulated by multiple TBP and TFB transcription factors? Molecular Microbiology. 36: 1184-5. PMID 10844702 DOI: 10.1046/J.1365-2958.2000.01916.X |
0.772 |
|
| 2000 |
Baliga NS, DasSarma S. Saturation mutagenesis of the haloarchaeal bop gene promoter: identification of DNA supercoiling sensitivity sites and absence of TFB recognition element and UAS enhancer activity. Molecular Microbiology. 36: 1175-83. PMID 10844701 DOI: 10.1046/J.1365-2958.2000.01915.X |
0.625 |
|
| 1999 |
Baliga NS, DasSarma S. Saturation mutagenesis of the TATA box and upstream activator sequence in the haloarchaeal bop gene promoter. Journal of Bacteriology. 181: 2513-8. PMID 10198017 DOI: 10.1128/Jb.181.8.2513-2518.1999 |
0.634 |
|
| Low-probability matches (unlikely to be authored by this person) |
| 2016 |
Peterson EJ, Ma S, Sherman DR, Baliga NS. Network analysis identifies Rv0324 and Rv0880 as regulators of bedaquiline tolerance in Mycobacterium tuberculosis. Nature Microbiology. 1: 16078. PMID 27573104 DOI: 10.1038/Nmicrobiol.2016.78 |
0.3 |
|
| 2014 |
Hillesland KL, Lim S, Flowers JJ, Turkarslan S, Pinel N, Zane GM, Elliott N, Qin Y, Wu L, Baliga NS, Zhou J, Wall JD, Stahl DA. Erosion of functional independence early in the evolution of a microbial mutualism. Proceedings of the National Academy of Sciences of the United States of America. 111: 14822-7. PMID 25267659 DOI: 10.1073/Pnas.1407986111 |
0.299 |
|
| 2010 |
Tenenbaum D, Bare JC, Baliga NS. GTC: A web server for integrating systems biology data with web tools and desktop applications. Source Code For Biology and Medicine. 5: 7. PMID 20626906 DOI: 10.1186/1751-0473-5-7 |
0.299 |
|
| 2013 |
Beer KD, Orellana MV, Baliga NS. Modeling the evolution of C4 photosynthesis. Cell. 153: 1427-9. PMID 23791172 DOI: 10.1016/J.Cell.2013.05.058 |
0.297 |
|
| 2015 |
Hennon GMM, Ashworth J, Groussman RD, Berthiaume C, Morales RL, Baliga NS, Orellana MV, Armbrust EV. Diatom acclimation to elevated CO 2 via cAMP signalling and coordinated gene expression Nature Climate Change. 5: 761-765. DOI: 10.1038/Nclimate2683 |
0.296 |
|
| 2010 |
Gehlenborg N, O'Donoghue SI, Baliga NS, Goesmann A, Hibbs MA, Kitano H, Kohlbacher O, Neuweger H, Schneider R, Tenenbaum D, Gavin AC. Visualization of omics data for systems biology. Nature Methods. 7: S56-68. PMID 20195258 DOI: 10.1038/Nmeth.1436 |
0.291 |
|
| 2020 |
Flores-Valdez MA, Aceves-Sánchez MJ, Peterson EJR, Baliga N, Bravo-Madrigal J, De la Cruz-Villegas MÁ, Ares MA, Born S, Voskuil M, Pérez-Padilla NA, Burciaga-Flores M, Camacho-Villegas TA, Espinoza-Jorge MG. Transcriptional portrait of M. bovis BCG during biofilm production shows genes differentially expressed during intercellular aggregation and substrate attachment. Scientific Reports. 10: 12578. PMID 32724037 DOI: 10.1038/S41598-020-69152-2 |
0.29 |
|
| 2023 |
Wang Y, Gallagher LA, Andrade PA, Liu A, Humphreys IR, Turkarslan S, Cutler KJ, Arrieta-Ortiz ML, Li Y, Radey MC, McLean JS, Cong Q, Baker D, Baliga NS, Peterson SB, et al. Genetic manipulation of candidate phyla radiation bacteria provides functional insights into microbial dark matter. Biorxiv : the Preprint Server For Biology. PMID 37205512 DOI: 10.1101/2023.05.02.539146 |
0.289 |
|
| 2011 |
Tautenhahn R, Patti GJ, Kalisiak E, Miyamoto T, Schmidt M, Lo FY, McBee J, Baliga NS, Siuzdak G. metaXCMS: second-order analysis of untargeted metabolomics data. Analytical Chemistry. 83: 696-700. PMID 21174458 DOI: 10.1021/Ac102980G |
0.287 |
|
| 2020 |
Vega-Dominguez P, Peterson E, Pan M, Di Maio A, Singh S, Umapathy S, Saini DK, Baliga N, Bhatt A. Biofilms of the non-tuberculous form an extracellular matrix and display distinct expression patterns. Cell Surface (Amsterdam, Netherlands). 6: 100043. PMID 32803022 DOI: 10.1016/J.Tcsw.2020.100043 |
0.286 |
|
| 2018 |
Flowers JJ, Richards MA, Baliga N, Meyer B, Stahl DA. Constraint-Based Modeling Captures the Metabolic Versatility of Desulfovibrio vulgaris. Environmental Microbiology Reports. PMID 29377633 DOI: 10.1111/1758-2229.12619 |
0.285 |
|
| 2017 |
Baliga NS, Björkegren JL, Boeke JD, Boutros M, Crawford NP, Dudley AM, Farber CR, Jones A, Levey AI, Lusis AJ, Mak HC, Nadeau JH, Noyes MB, Petretto E, Seyfried NT, et al. The State of Systems Genetics in 2017. Cell Systems. 4: 7-15. PMID 28125793 DOI: 10.1016/J.Cels.2017.01.005 |
0.28 |
|
| 2007 |
Bare JC, Shannon PT, Schmid AK, Baliga NS. The Firegoose: two-way integration of diverse data from different bioinformatics web resources with desktop applications. Bmc Bioinformatics. 8: 456. PMID 18021453 DOI: 10.1186/1471-2105-8-456 |
0.277 |
|
| 2014 |
Bare JC, Baliga NS. Architecture for interoperable software in biology. Briefings in Bioinformatics. 15: 626-36. PMID 23235920 DOI: 10.1093/Bib/Bbs074 |
0.272 |
|
| 2016 |
Rothchild AC, Sissons JR, Shafiani S, Plaisier C, Min D, Mai D, Gilchrist M, Peschon J, Larson RP, Bergthaler A, Baliga NS, Urdahl KB, Aderem A. MiR-155-regulated molecular network orchestrates cell fate in the innate and adaptive immune response to Mycobacterium tuberculosis. Proceedings of the National Academy of Sciences of the United States of America. PMID 27681624 DOI: 10.1073/Pnas.1608255113 |
0.272 |
|
| 2021 |
Arrieta-Ortiz ML, Immanuel SRC, Turkarslan S, Wu WJ, Girinathan BP, Worley JN, DiBenedetto N, Soutourina O, Peltier J, Dupuy B, Bry L, Baliga NS. Predictive regulatory and metabolic network models for systems analysis of Clostridioides difficile. Cell Host & Microbe. PMID 34637780 DOI: 10.1016/j.chom.2021.09.008 |
0.264 |
|
| 2019 |
Carr A, Diener C, Baliga NS, Gibbons SM. Use and abuse of correlation analyses in microbial ecology. The Isme Journal. PMID 31253856 DOI: 10.1038/S41396-019-0459-Z |
0.261 |
|
| 2015 |
Thompson AW, Crow MJ, Wadey B, Arens C, Turkarslan S, Stolyar S, Elliott N, Petersen TW, van den Engh G, Stahl DA, Baliga NS. A method to analyze, sort, and retain viability of obligate anaerobic microorganisms from complex microbial communities. Journal of Microbiological Methods. 117: 74-7. PMID 26187776 DOI: 10.1016/J.Mimet.2015.07.009 |
0.26 |
|
| 2021 |
Neal ML, Wei L, Peterson E, Arrieta-Ortiz ML, Danziger SA, Baliga NS, Kaushansky A, Aitchison JD. A systems-level gene regulatory network model for Plasmodium falciparum. Nucleic Acids Research. PMID 33450011 DOI: 10.1093/nar/gkaa1245 |
0.26 |
|
| 2012 |
Plaisier CL, Pan M, Baliga NS. A miRNA-regulatory network explains how dysregulated miRNAs perturb oncogenic processes across diverse cancers. Genome Research. 22: 2302-14. PMID 22745231 DOI: 10.1101/Gr.133991.111 |
0.26 |
|
| 2011 |
Robinson CK, Webb K, Kaur A, Jaruga P, Dizdaroglu M, Baliga NS, Place A, Diruggiero J. A major role for nonenzymatic antioxidant processes in the radioresistance of Halobacterium salinarum. Journal of Bacteriology. 193: 1653-62. PMID 21278285 DOI: 10.1128/Jb.01310-10 |
0.252 |
|
| 2019 |
Zengler K, Hofmockel K, Baliga NS, Behie SW, Bernstein HC, Brown JB, Dinneny JR, Floge SA, Forry SP, Hess M, Jackson SA, Jansson C, Lindemann SR, Pett-Ridge J, Maranas C, et al. EcoFABs: advancing microbiome science through standardized fabricated ecosystems. Nature Methods. PMID 31227812 DOI: 10.1038/S41592-019-0465-0 |
0.251 |
|
| 2023 |
Wang Y, Gallagher LA, Andrade PA, Liu A, Humphreys IR, Turkarslan S, Cutler KJ, Arrieta-Ortiz ML, Li Y, Radey MC, McLean JS, Cong Q, Baker D, Baliga NS, Peterson SB, et al. Genetic manipulation of Patescibacteria provides mechanistic insights into microbial dark matter and the epibiotic lifestyle. Cell. PMID 37683634 DOI: 10.1016/j.cell.2023.08.017 |
0.25 |
|
| 2015 |
Imam S, Schäuble S, Brooks AN, Baliga NS, Price ND. Data-driven integration of genome-scale regulatory and metabolic network models Frontiers in Microbiology. 6. DOI: 10.3389/fmicb.2015.00409 |
0.247 |
|
| 2013 |
Pang WL, Kaur A, Ratushny AV, Cvetkovic A, Kumar S, Pan M, Arkin AP, Aitchison JD, Adams MW, Baliga NS. Metallochaperones regulate intracellular copper levels. Plos Computational Biology. 9: e1002880. PMID 23349626 DOI: 10.1371/Journal.Pcbi.1002880 |
0.246 |
|
| 2014 |
Ekici S, Turkarslan S, Pawlik G, Dancis A, Baliga NS, Koch HG, Daldal F. Intracytoplasmic copper homeostasis controls cytochrome c oxidase production. Mbio. 5: e01055-13. PMID 24425735 DOI: 10.1128/Mbio.01055-13 |
0.245 |
|
| 2018 |
Valenzuela JJ, López García de Lomana A, Lee A, Armbrust EV, Orellana MV, Baliga NS. Ocean acidification conditions increase resilience of marine diatoms. Nature Communications. 9: 2328. PMID 29899534 DOI: 10.1038/S41467-018-04742-3 |
0.245 |
|
| 2020 |
Mast FD, Navare AT, van der Sloot AM, Coulombe-Huntington J, Rout MP, Baliga NS, Kaushansky A, Chait BT, Aderem A, Rice CM, Sali A, Tyers M, Aitchison JD. Crippling life support for SARS-CoV-2 and other viruses through synthetic lethality. The Journal of Cell Biology. 219. PMID 32785687 DOI: 10.1083/Jcb.202006159 |
0.235 |
|
| 2019 |
Sathe S, Orellana MV, Baliga NS, Durand PM. Temporal and metabolic overlap between lipid accumulation and programmed cell death due to nitrogen starvation in the unicellular chlorophyte
Chlamydomonas reinhardtii Phycological Research. 67: 173-183. DOI: 10.1111/Pre.12368 |
0.232 |
|
| 2020 |
Idso MN, Akhade AS, Arrieta-Ortiz ML, Lai BT, Srinivas V, Hopkins JP, Gomes AO, Subramanian N, Baliga N, Heath JR. Antibody-recruiting protein-catalyzed capture agents to combat antibiotic-resistant bacteria Chemical Science. 11: 3054-3067. DOI: 10.1039/C9Sc04842A |
0.227 |
|
| 2012 |
Plaisier CL, Baliga NS. Harnessing the power of human tumor-derived cell lines for the rational design of cancer therapies. Pigment Cell & Melanoma Research. 25: 406-8. PMID 22781216 DOI: 10.1111/J.1755-148X.2012.01020.X |
0.222 |
|
| 2012 |
Edgar RS, Green EW, Zhao Y, van Ooijen G, Olmedo M, Qin X, Xu Y, Pan M, Valekunja UK, Feeney KA, Maywood ES, Hastings MH, Baliga NS, Merrow M, Millar AJ, et al. Erratum: Corrigendum: Peroxiredoxins are conserved markers of circadian rhythms Nature. 489: 590-590. DOI: 10.1038/Nature11427 |
0.222 |
|
| 2018 |
Flores-Valdez MA, Pedroza-Roldán C, Aceves-Sánchez MJ, Peterson EJR, Baliga NS, Hernández-Pando R, Troudt J, Creissen E, Izzo L, Bielefeldt-Ohmann H, Bickett T, Izzo AA. The BCGΔBCG1419c Vaccine Candidate Reduces Lung Pathology, IL-6, TNF-α, and IL-10 During Chronic TB Infection. Frontiers in Microbiology. 9: 1281. PMID 29946316 DOI: 10.3389/Fmicb.2018.01281 |
0.212 |
|
| 2021 |
Immanuel SRC, Arrieta-Ortiz ML, Ruiz RA, Pan M, Lopez Garcia de Lomana A, Peterson EJR, Baliga NS. Quantitative prediction of conditional vulnerabilities in regulatory and metabolic networks using PRIME. Npj Systems Biology and Applications. 7: 43. PMID 34873198 DOI: 10.1038/s41540-021-00205-6 |
0.208 |
|
| 2014 |
Verissimo A, Khalfaoui-Hassani B, Lanciano P, Ekici S, Selamoglu N, Turkarslan S, Baliga N, Pawlik G, Trasnea P, Koch H, Tropeano C, Ghelli A, Rugolo M, Daldal F. Biogenesis of cytochrome c complexes: From c-type cytochrome and heme–copper center maturation to supercomplex formation Biochimica Et Biophysica Acta (Bba) - Bioenergetics. 1837: e2-e3. DOI: 10.1016/J.Bbabio.2014.05.118 |
0.199 |
|
| 2021 |
Turkarslan S, Stopnisek N, Thompson AW, Arens CE, Valenzuela JJ, Wilson J, Hunt KA, Hardwicke J, de Lomana ALG, Lim S, Seah YM, Fu Y, Wu L, Zhou J, Hillesland KL, ... ... Baliga NS, et al. Synergistic epistasis enhances the co-operativity of mutualistic interspecies interactions. The Isme Journal. PMID 33612833 DOI: 10.1038/s41396-021-00919-9 |
0.192 |
|
| 2023 |
Wang Y, Ledvina HE, Tower CA, Kambarev S, Liu E, Charity JC, Kreuk LSM, Tang Q, Chen Q, Gallagher LA, Radey MC, Rerolle GF, Li Y, Penewit KM, Turkarslan S, ... ... Baliga NS, et al. Discovery of a glutathione utilization pathway in Francisella that shows functional divergence between environmental and pathogenic species. Cell Host & Microbe. PMID 37453420 DOI: 10.1016/j.chom.2023.06.010 |
0.191 |
|
| 2021 |
Lui LM, Majumder EL, Smith HJ, Carlson HK, von Netzer F, Fields MW, Stahl DA, Zhou J, Hazen TC, Baliga NS, Adams PD, Arkin AP. Mechanism Across Scales: A Holistic Modeling Framework Integrating Laboratory and Field Studies for Microbial Ecology. Frontiers in Microbiology. 12: 642422. PMID 33841364 DOI: 10.3389/fmicb.2021.642422 |
0.186 |
|
| 2022 |
Cooper C, Peterson EJR, Bailo R, Pan M, Singh A, Moynihan P, Nakaya M, Fujiwara N, Baliga N, Bhatt A. MadR mediates acyl CoA-dependent regulation of mycolic acid desaturation in mycobacteria. Proceedings of the National Academy of Sciences of the United States of America. 119. PMID 35165190 DOI: 10.1073/pnas.2111059119 |
0.186 |
|
| 2021 |
Wall MA, Turkarslan S, Wu WJ, Danziger SA, Reiss DJ, Mason MJ, Dervan AP, Trotter MWB, Bassett D, Hershberg RM, Lomana ALG, Ratushny AV, Baliga NS. Genetic program activity delineates risk, relapse, and therapy responsiveness in multiple myeloma. Npj Precision Oncology. 5: 60. PMID 34183722 DOI: 10.1038/s41698-021-00185-0 |
0.185 |
|
| 2023 |
Peterson EJR, Brooks AN, Reiss DJ, Kaur A, Do J, Pan M, Wu WJ, Morrison R, Srinivas V, Carter W, Arrieta-Ortiz ML, Ruiz RA, Bhatt A, Baliga NS. MtrA modulates Mycobacterium tuberculosis cell division in host microenvironments to mediate intrinsic resistance and drug tolerance. Cell Reports. 42: 112875. PMID 37542718 DOI: 10.1016/j.celrep.2023.112875 |
0.181 |
|
| 2023 |
Kusebauch U, Lorenzetti APR, Campbell DS, Pan M, Shteynberg D, Kapil C, Midha MK, López García de Lomana A, Baliga NS, Moritz RL. A comprehensive spectral assay library to quantify the Halobacterium salinarum NRC-1 proteome by DIA/SWATH-MS. Scientific Data. 10: 697. PMID 37833331 DOI: 10.1038/s41597-023-02590-5 |
0.178 |
|
| 2022 |
Arrieta-Ortiz ML, Pan M, Kaur A, Pepper-Tunick E, Srinivas V, Dash A, Immanuel SRC, Brooks AN, Shepherd TR, Baliga NS. Disrupting the ArcA Regulatory Network Amplifies the Fitness Cost of Tetracycline Resistance in Escherichia coli. Msystems. e0090422. PMID 36537814 DOI: 10.1128/msystems.00904-22 |
0.177 |
|
| 2021 |
Otwell AE, Carr AV, Majumder ELW, Ruiz MK, Wilpiszeski RL, Hoang LT, Webb B, Turkarslan S, Gibbons SM, Elias DA, Stahl DA, Siuzdak G, Baliga NS. Sulfur Metabolites Play Key System-Level Roles in Modulating Denitrification. Msystems. 6. PMID 33563788 DOI: 10.1128/mSystems.01025-20 |
0.173 |
|
| 2015 |
Raman AV, Baliga NS. The universe under a microscope Environmental Microbiology Reports. 7: 11-12. PMID 25721591 DOI: 10.1111/1758-2229.12225 |
0.166 |
|
| 2022 |
Pavao A, Graham M, Arrieta-Ortiz ML, Immanuel SRC, Baliga NS, Bry L. Reconsidering the in vivo functions of Clostridial Stickland amino acid fermentations. Anaerobe. 76: 102600. PMID 35709938 DOI: 10.1016/j.anaerobe.2022.102600 |
0.161 |
|
| 2021 |
Nivedita N, Aitchison JD, Baliga NS. Autophagy as a Mechanism for Adaptive Prediction-Mediated Emergence of Drug Resistance. Frontiers in Microbiology. 12: 712631. PMID 34566920 DOI: 10.3389/fmicb.2021.712631 |
0.157 |
|
| 2022 |
Xavier JB, Monk JM, Poudel S, Norsigian CJ, Sastry AV, Liao C, Bento J, Suchard MA, Arrieta-Ortiz ML, Peterson EJR, Baliga NS, Stoeger T, Ruffin F, Richardson RAK, Gao CA, et al. Mathematical models to study the biology of pathogens and the infectious diseases they cause. Iscience. 25: 104079. PMID 35359802 DOI: 10.1016/j.isci.2022.104079 |
0.152 |
|
| 2024 |
Turkarslan S, He Y, Hothi P, Murie C, Nicolas A, Kannan K, Park JH, Pan M, Awawda A, Cole ZD, Shapiro MA, Stuhlmiller TJ, Lee H, Patel AP, Cobbs C, ... Baliga NS, et al. An atlas of causal and mechanistic drivers of interpatient heterogeneity in glioma. Medrxiv : the Preprint Server For Health Sciences. PMID 38633778 DOI: 10.1101/2024.04.05.24305380 |
0.151 |
|
| 2021 |
Dokic A, Peterson E, Arrieta-Ortiz ML, Pan M, Di Maio A, Baliga N, Bhatt A. biofilms produce an extracellular matrix and have a distinct mycolic acid profile. Cell Surface (Amsterdam, Netherlands). 7: 100051. PMID 33912773 DOI: 10.1016/j.tcsw.2021.100051 |
0.141 |
|
| 2021 |
Girinathan BP, DiBenedetto N, Worley JN, Peltier J, Arrieta-Ortiz ML, Immanuel SRC, Lavin R, Delaney ML, Cummins CK, Hoffman M, Luo Y, Gonzalez-Escalona N, Allard M, Onderdonk AB, Gerber GK, ... ... Baliga NS, et al. In vivo commensal control of Clostridioides difficile virulence. Cell Host & Microbe. PMID 34637781 DOI: 10.1016/j.chom.2021.09.007 |
0.141 |
|
| 2022 |
Park JH, Feroze AH, Emerson SN, Mihalas AB, Keene CD, Cimino PJ, de Lomana ALG, Kannan K, Wu WJ, Turkarslan S, Baliga NS, Patel AP. A single-cell based precision medicine approach using glioblastoma patient-specific models. Npj Precision Oncology. 6: 55. PMID 35941215 DOI: 10.1038/s41698-022-00294-4 |
0.134 |
|
| 2020 |
Srinivas V, Arrieta-Ortiz ML, Kaur A, Peterson EJR, Baliga NS. PerSort Facilitates Characterization and Elimination of Persister Subpopulation in Mycobacteria. Msystems. 5. PMID 33262242 DOI: 10.1128/mSystems.01127-20 |
0.133 |
|
| 2024 |
Park JH, Hothi P, Garcia de Lomana AL, Pan M, Calder R, Turkarslan S, Wu WJ, Lee H, Patel AP, Cobbs C, Huang S, Baliga NS. Gene regulatory network topology governs resistance and treatment escape in glioma stem-like cells. Biorxiv : the Preprint Server For Biology. PMID 38370784 DOI: 10.1101/2024.02.02.578510 |
0.131 |
|
| 2021 |
Azer K, Kaddi CD, Barrett JS, Bai JPF, McQuade ST, Merrill NJ, Piccoli B, Neves-Zaph S, Marchetti L, Lombardo R, Parolo S, Immanuel SRC, Baliga NS. History and Future Perspectives on the Discipline of Quantitative Systems Pharmacology Modeling and Its Applications. Frontiers in Physiology. 12: 637999. PMID 33841175 DOI: 10.3389/fphys.2021.637999 |
0.129 |
|
| 2020 |
Midha MK, Kusebauch U, Shteynberg D, Kapil C, Bader SL, Reddy PJ, Campbell DS, Baliga NS, Moritz RL. A comprehensive spectral assay library to quantify the Escherichia coli proteome by DIA/SWATH-MS. Scientific Data. 7: 389. PMID 33184295 DOI: 10.1038/s41597-020-00724-7 |
0.126 |
|
| 2024 |
Murie C, Turkarslan S, Patel A, Coffey DG, Becker PS, Baliga NS. Individualized dynamic risk assessment for multiple myeloma. Medrxiv : the Preprint Server For Health Sciences. PMID 38633807 DOI: 10.1101/2024.04.01.24305024 |
0.12 |
|
| 2024 |
Gupta VK, Vaishnavi VV, Arrieta-Ortiz ML, P S A, K M J, Jeyasankar S, Raghunathan V, Baliga NS, Agarwal R. 3-Dimensional Hydrogel Culture System Recapitulates Key Tuberculosis Phenotypes and Demonstrates Pyrazinamide Efficacy. Advanced Healthcare Materials. e2304299. PMID 38655817 DOI: 10.1002/adhm.202304299 |
0.119 |
|
| 2021 |
Day JA, Diener C, Otwell AE, Tams KE, Bebout B, Detweiler AM, Lee MD, Scott MT, Ta W, Ha M, Carreon SA, Tong K, Ali AA, Gibbons SM, Baliga NS. Lettuce (Lactuca sativa) productivity influenced by microbial inocula under nitrogen-limited conditions in aquaponics. Plos One. 16: e0247534. PMID 33621265 DOI: 10.1371/journal.pone.0247534 |
0.119 |
|
| 2020 |
Idso MN, Akhade AS, Arrieta-Ortiz ML, Lai BT, Srinivas V, Hopkins JP, Gomes AO, Subramanian N, Baliga N, Heath JR. Antibody-recruiting protein-catalyzed capture agents to combat antibiotic-resistant bacteria. Chemical Science. 11: 3054-3067. PMID 34122810 DOI: 10.1039/c9sc04842a |
0.119 |
|
| 2023 |
Carr A, Baliga NS, Diener C, Gibbons SM. Personalized engraftment risk prediction and probiotic therapy assessment in the human gut. Biorxiv : the Preprint Server For Biology. PMID 37162960 DOI: 10.1101/2023.04.28.538771 |
0.115 |
|
| 2021 |
Voolstra CR, Valenzuela JJ, Turkarslan S, Cárdenas A, Hume BCC, Perna G, Buitrago-López C, Rowe K, Orellana MV, Baliga NS, Paranjape S, Banc-Prandi G, Bellworthy J, Fine M, Frias-Torres S, et al. Contrasting heat stress response patterns of coral holobionts across the Red Sea suggest distinct mechanisms of thermal tolerance. Molecular Ecology. PMID 34342082 DOI: 10.1111/mec.16064 |
0.1 |
|
| 2023 |
Lim JJ, Diener C, Wilson J, Valenzuela JJ, Baliga NS, Gibbons SM. Growth phase estimation for abundant bacterial populations sampled longitudinally from human stool metagenomes. Nature Communications. 14: 5682. PMID 37709733 DOI: 10.1038/s41467-023-41424-1 |
0.099 |
|
| 2021 |
Srinivas V, Ruiz RA, Pan M, Immanuel SRC, Peterson EJR, Baliga NS. Transcriptome signature of cell viability predicts drug response and drug interaction in . Cell Reports Methods. 1: None. PMID 34977849 DOI: 10.1016/j.crmeth.2021.100123 |
0.081 |
|
| 1999 |
Ramamurthy N, Baliga N, Wakefield TW, Andrews PC, Yang VC, Meyerhoff ME. Determination of low-molecular-weight heparins and their binding to protamine and a protamine analog using polyion-sensitive membrane electrodes. Analytical Biochemistry. 266: 116-24. PMID 9887220 DOI: 10.1006/Abio.1998.2947 |
0.074 |
|
| 2015 |
Thompson AW, Crow MJ, Wadey B, Arens C, Turkarslan S, Stolyar S, Elliott N, Petersen TW, van den Engh G, Stahl DA, Baliga NS. A method to analyze, sort, and retain viability of obligate anaerobic microorganisms from complex microbial communities Journal of Microbiological Methods. 117: 74-77. DOI: 10.1016/j.mimet.2015.07.009 |
0.071 |
|
| 2024 |
Hunt KA, Carr AV, Otwell AE, Valenzuela JJ, Walker KS, Dixon ER, Lui LM, Nielsen TN, Bowman S, von Netzer F, Moon JW, Schadt CW, Rodriguez M, Lowe K, Joyner D, ... ... Baliga NS, et al. Contribution of Microorganisms with the Clade II Nitrous Oxide Reductase to Suppression of Surface Emissions of Nitrous Oxide. Environmental Science & Technology. PMID 38608141 DOI: 10.1021/acs.est.3c07972 |
0.066 |
|
| 2021 |
Park JH, de Lomana ALG, Marzese DM, Juarez T, Feroze A, Hothi P, Cobbs C, Patel AP, Kesari S, Huang S, Baliga NS. A Systems Approach to Brain Tumor Treatment. Cancers. 13. PMID 34202449 DOI: 10.3390/cancers13133152 |
0.057 |
|
| 2021 |
Peterson EJR, Abidi AA, Arrieta-Ortiz ML, Aguilar B, Yurkovich JT, Kaur A, Pan M, Srinivas V, Shmulevich I, Baliga NS. Intricate Genetic Programs Controlling Dormancy in Mycobacterium tuberculosis. Cell Reports. 35: 109287. PMID 34133939 DOI: 10.1016/j.celrep.2021.109287 |
0.046 |
|
| 2001 |
Wahr JA, Gerber M, Venitz J, Baliga N. Allosteric Modification of Oxygen Delivery by Hemoglobin Anesthesia and Analgesia. 92: 615-620. DOI: 10.1213/00000539-200103000-00011 |
0.044 |
|
| 1998 |
Ramamurthy N, Baliga N, Wahr JA, Schaller U, Yang VC, Meyerhoff ME. Improved protamine-sensitive membrane electrode for monitoring heparin concentrations in whole blood via protamine titration§ Clinical Chemistry. 44: 606-613. DOI: 10.1093/clinchem/44.3.606 |
0.041 |
|
| 2000 |
Schoenfisch MH, Mowery KA, Rader MV, Baliga N, Wahr JA, Meyerhoff ME. Improving the thromboresistivity of chemical sensors via nitric oxide release: fabrication and in vivo evaluation of NO-releasing oxygen-sensing catheters. Analytical Chemistry. 72: 1119-26. PMID 10740848 DOI: 10.1021/Ac991370C |
0.041 |
|
| 1998 |
Dorje P, Adhikary G, Baliga N, Hugunin R, Paxton LD, Stoneham M. Hemodynamics of aortic cross-clamping. Journal of Cardiothoracic and Vascular Anesthesia. 11: 921-2. PMID 9412899 DOI: 10.1016/S1053-0770(97)90149-X |
0.01 |
|
| 1996 |
Baliga N. CSF progesterone concentrations in pregnancy. British Journal of Anaesthesia. 76: 886. PMID 8679377 DOI: 10.1093/bja/76.6.886 |
0.01 |
|
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